millironx/nf-core_modules
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nf-core_modules/software
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Edmund Miller 5c116dba78
refactor(appyter): Use an input dir instead of single file 
This uses an input directory rather than a single file to handle an
ambiguous amount of input files for any random appyter. If it doesn't
take an input files the directory can be blank.

Co-authored-by:  sruthipsuresh <sps180004@utdallas.edu>
2021-03-17 12:06:37 -05:00
..
appyter refactor(appyter): Use an input dir instead of single file 2021-03-17 12:06:37 -05:00
bandage/image Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bcftools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bedtools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bismark Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
blast Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bowtie Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bowtie2 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bwa Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bwamem2 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
bwameth Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
cat/fastq Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
cutadapt Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
deeptools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
dsh Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
fastp Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
fastqc Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
gatk4 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
gffread Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
gunzip Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
hisat2 Fix bowtie builds (#273) 2021-03-15 15:39:42 +01:00
homer/annotatepeaks Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
ivar Rename .github/filters.yml -> tests/config/pytest_software.yml (#271) 2021-03-15 12:51:30 +00:00
lib style(#77): Fix editorconfig errors 2020-12-17 17:50:24 -06:00
macs2/callpeak Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
methyldackel Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
minimap2/align Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
mosdepth Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
multiqc Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
pangolin Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
phantompeakqualtools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
picard Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
preseq/lcextrap Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
qualimap Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
quast Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
rsem Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
rseqc Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
salmon Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
samtools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
seacr/callpeak Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
seqkit/split2 Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
seqwish/induce Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
sortmerna Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
star Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
stringtie Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
subread/featurecounts Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
tabix Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
tiddit/sv Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
trimgalore Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
ucsc/bedgraphtobigwig Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
umitools Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00
untar Remove def from module options definition in main (#270) 2021-03-15 12:16:43 +00:00